Ncbi Database Python Packages

pubmatrixpython

PubMatrixP is an Python version of R package PubMatrixR that performs systematic literature searches on PubMed and PMC databases using pairwise combinations of search terms. It creates co-occurrence matrices showing the number of publications that mention both terms from two different sets, enabling to explore relationships between term

enigmadatabase

NCBI DNA Database Builder and Dataset Loader for ML pipelines (Enigma2).

flextaxd

FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

refseq-plasmid-dl

A command-line tool to download and curate RefSeq plasmid sequences from NCBI.